Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00138.N17

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 2534
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31


Found at i:2396 original size:2 final size:2

Alignment explanation


    Indices: 2389--2423  Score: 63
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       2379 GCAGAGTAGT

                                                                 
       2389 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       2424 CATGTTTGTA


Statistics
Matches: 32,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   31  0.97

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:2410 original size:17 final size:17

Alignment explanation


    Indices: 2388--2422  Score: 70
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       2378 AGCAGAGTAG

                             
       2388 TTATATATATATATATA
          1 TTATATATATATATATA

                             
       2405 TTATATATATATATATA
          1 TTATATATATATATATA

             
       2422 T
          1 T

       2423 ACATGTTTGT


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   18  1.00

ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54


Consensus pattern (17 bp):   
TTATATATATATATATA

Found at i:2411 original size:15 final size:15

Alignment explanation


    Indices: 2391--2420  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       2381 AGAGTAGTTA

                           
       2391 TATATATATATATAT
          1 TATATATATATATAT

                           
       2406 TATATATATATATAT
          1 TATATATATATATAT

       2421 ATACATGTTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53


Consensus pattern (15 bp):   
TATATATATATATAT
Done.